MK5 Microarray Data

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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description	Rank	Gene	Hugo	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1962 to 2011 of 8289 in total

Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1

description	Rank	Hugo	Interaction Map	red	green	network_comparison
dj18d14.4 (cytochrome p450, subfamily iva, polypeptide 11). [sptrembl;acc:q9ntl5]	1287	CYP4A22	High confidence	218.368	213.22	1.02414
dj254p11.1 (novel protein similar to rna polymerase ii elongation factor siii, subunit p15). [sptrembl;acc:q9h575]	2967	no value	Low confidence	201.618	198.274	1.01687
dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5]	157	XKR7		178.507	168.371	1.0602
dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]	576	no value	High confidence	235.18	250.419	1.0648
	2104		Low confidence	205.285	201.409	1.01924
dj422b11.1.1 (dna primase large subunit (polypeptide 2a, p58)) (fragment). [sptrembl;acc:q9h412]	2135	PRIM2		199.028	195.285	1.01917
dj467n11.1 protein. [refseq;acc:nm_022091]	1814	ASCC3		199.184	195.266	1.02006
dj470l14.3 (novel protein similar to the arp2/3 protein complex subunit p21-arc (arc21)). [sptrembl;acc:q9h5b6]	568	no value		202.86	196.783	1.03088
	2621		High confidence	224.891	225.195	1.00135
dj545l17.2 (novel protein similar to rad21 (s. pombe) homolog (kiaa0078)) (fragment). [sptrembl;acc:q9h4i0]	1813		Low confidence	202.127	198.153	1.02006
dj54b20.2 (novel krab box containing c2h2 type zinc finger protein) (fragment). [sptrembl;acc:q96qh9]	4363	ZNF630		197.793	195.963	1.00934
dj54b20.4 (novel krab box containing c2h2 type zinc finger protein). [sptrembl;acc:q96qh7]	4318	no value
dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	837			194.47	189.552	1.02595
	2408		High confidence	194.407	193.706	1.00362
dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]	2835	HMG1L1	Low confidence	204.739	201.278	1.0172
	3025		High confidence	0.00001	0.00001	1
dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	700	no value		220.438	209.118	1.05413
	4460		Low confidence	203.7	201.847	1.00918
dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [sptrembl;acc:q9ugb5]	1125		High confidence	204.404	210.022	1.02748
	2602		Low confidence	201.612	198.066	1.0179
dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	222	MYH7B	High confidence	112	126	1.125
	2854		Low confidence	200.123	196.749	1.01715
dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	177	NCBP2L	High confidence	229.406	196.695	1.1663
	275		Low confidence	199.66	191.203	1.04423
dj842g6.2 (novel protein imilar to sel1l (sel-1 (suppressor of lin-12, c.elegans)-like)) (fragment). [sptrembl;acc:q9ugd3]	933	SEL1L2		190.447	185.802	1.025
dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03]	1881	no value	High confidence	210.592	208.355	1.01074
	3169		Low confidence	202.663	199.436	1.01618
dj927m24.2 (kiaa1219) (fragment). [sptrembl;acc:q9h3x8]	4938	KIAA1219		205.2	204.964	1.00115
dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	1329	no value	High confidence	218.509	213.648	1.02275
	1372		Low confidence	203.724	199.342	1.02198
dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	1326	CSMD1	High confidence	218.509	213.648	1.02275
	1370		Low confidence	203.724	199.342	1.02198
dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	339	no value	High confidence	243.583	267.527	1.0983
	4668		Low confidence	206.853	208.116	1.00611
dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531]	1029	DDB1	High confidence	222.364	215.535	1.03168
	3524		Low confidence	198.7	195.805	1.01479
dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	906	no value	High confidence	230.764	239.62	1.03838
	4963		Low confidence	201.297	201.493	1.00097
dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	905		High confidence	230.768	239.632	1.03841
	4964		Low confidence	201.299	201.494	1.00097
dna excision repair protein ercc-1. [swissprot;acc:p07992]	3216	ERCC1	High confidence	0.00001	0.00001	1
	4977		Low confidence	203.61	203.773	1.0008
dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075]	86	DFFB		233.922	215.309	1.08645
	2515		High confidence	215.835	216.341	1.00234
dna fragmentation factor alpha subunit (dna fragmentation factor 45 kda subunit) (dff-45) (inhibitor of cad) (icad). [swissprot;acc:o00273]	914	DFFA	Low confidence	208.387	203.272	1.02516
	2517		High confidence	215.835	216.341	1.00234
dna helicase homolog (fragment). [sptrembl;acc:q9y645]	1949	PIF1	Low confidence	201.429	197.549	1.01964
dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]	735	LIG1		204.123	198.699	1.0273
	3103		High confidence	0.00001	0.00001	1
dna ligase iv (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p49917]	886	LIG4	Low confidence	202.568	197.535	1.02548

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Hugo is the HGNC identifier if it exists
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.